8TRR
T cell recognition of citrullinated vimentin peptide presented by HLA-DR4
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, F (A, F) | HLA class II histocompatibility antigen, DR alpha chain | polymer | 181 | 21084.8 | 2 | UniProt (P01903) Pfam (PF00993) Pfam (PF07654) | Homo sapiens (human) | MHC class II antigen DRA |
| 2 | B, G (B, G) | HLA class II histocompatibility antigen, DRB1 beta chain | polymer | 190 | 22275.7 | 2 | UniProt (P01911) Pfam (PF00969) Pfam (PF07654) | Homo sapiens (human) | Human leukocyte antigen DRB1,HLA-DRB1 |
| 3 | C, H (C, H) | Vimentin | polymer | 13 | 1438.6 | 2 | UniProt (P08670) | Homo sapiens | |
| 4 | D, I (D, I) | A03 TCR alpha chain | polymer | 209 | 23059.5 | 2 | Mus musculus (mouse) | ||
| 5 | E, J (E, J) | A03 TCR beta chain | polymer | 243 | 27197.1 | 2 | Mus musculus (mouse) | ||
| 6 | K, L (K, L) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 2 | In PDB GlyTouCan (G42666HT) | |||
| 7 | M (M) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 627.6 | 1 | In PDB GlyTouCan (G47362BJ) | |||
| 8 | CA, DA, FA, N, O... (F, G, A, B, D...) | GLYCEROL | non-polymer | 92.1 | 10 | Chemie (GOL) | |||
| 9 | AA, EA, GA, HA, IA... (E, F, G, I, J...) | SULFATE ION | non-polymer | 96.1 | 16 | Chemie (SO4) | |||
| 10 | BA, S (F, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 11 | PA, QA, RA, SA, TA... (A, B, C, D, E...) | water | water | 18.0 | 91 | Chemie (HOH) |
Sequence modifications
B, G: 1 - 190 (UniProt: P01911)
| PDB | External Database | Details |
|---|---|---|
| Glu 9 | Trp 38 | variant |
| Val 11 | Pro 40 | variant |
| His 13 | Arg 42 | variant |
| His 33 | Asn 62 | variant |
| Tyr 37 | Ser 66 | variant |
| Tyr 47 | Phe 76 | variant |
| Leu 67 | Ile 96 | variant |
| Lys 71 | Ala 100 | variant |
| Gly 86 | Val 115 | variant |
| Tyr 96 | Gln 125 | variant |
| Glu 98 | Lys 127 | variant |
| Ala 104 | Ser 133 | variant |
| Asn 120 | Ser 149 | variant |
| Arg 133 | Leu 162 | variant |
| Thr 140 | Ala 169 | variant |
| Val 142 | Met 171 | variant |
| Leu 180 | Val 209 | variant |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 10 |
| Total formula weight | 190111.6 | |
| Branched | Number of molecules | 3 |
| Total formula weight | 1476.4 | |
| Non-Polymers* | Number of molecules | 28 |
| Total formula weight | 2900.4 | |
| All* | Total formula weight | 194488.4 |
